Histone Variant H2A.J is a Key Epigenetic Regulator in Human Trophoblast Development
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 58 samples
- What it is
- ChIP-seq / ATAC-seq (genome binding and open chromatin)Where proteins bind the genome, or which regions are open and active.
- Organism
- Homo sapiens (human)
- Samples
- 58 samples: 24 conditions, mostly in duplicateGroups are read from the sample names, not from the paper. Check the list below.
- Data you can get
- A processed table (series matrix) and supplementary files from NCBI; the raw sequencing reads from ENA. Which of these hold counts depends on the study, so check the file list.
Direct links to NCBI and ENA, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.
Processed table
The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.
Supplementary files
The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE262636_RAW.tar (it can run to tens of gigabytes).
Raw sequencing reads
The original FASTQ files, straight from the sequencer, held at ENA. Large, and you align them yourself, so only choose this if you need to re-process the study from scratch.
What the files usually look like: Look for peak files (.bed, .narrowPeak) and signal tracks (.bigWig) among the supplementary files; the raw reads are on ENA.
Also filed as BioProject PRJNA1092675 and SRA study SRP498270. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 48 samples.
How we read this: 24 replicated groups read from 58 sample titles; they account for 48 of them. These groups are guessed from the sample names, not taken from the paper, so check them against the sample list below before relying on them.
- GSM8172756 EV_STB_FLAG_Rep1 EV_STB_FLAG
- GSM8172757 EV_STB_FLAG_Rep2 EV_STB_FLAG
- GSM8172758 OE-H2AJ_STB_FLAG_Rep1 OE-H2AJ_STB_FLAG
- GSM8172759 OE-H2AJ_STB_FLAG_Rep2 OE-H2AJ_STB_FLAG
- GSM8172760 OE-H2AJ_STB_H2A_Rep1 OE-H2AJ_STB_H2A
- GSM8172761 OE-H2AJ_STB_H2A_Rep2 OE-H2AJ_STB_H2A
- GSM8172762 shCon_STB_IgG_Rep1 shCon_STB_IgG
- GSM8172763 shCon_STB_IgG_Rep2 shCon_STB_IgG
- GSM8172764 shCon_STB_S2_Rep1 shCon_STB_S2
- GSM8172765 shCon_STB_S2_Rep2 shCon_STB_S2
- GSM8172766 shCon_STB_S5_Rep1
- GSM8172767 shH2AJ_STB_IgG_Rep1 shH2AJ_STB_IgG
- GSM8172768 shH2AJ_STB_IgG_Rep2 shH2AJ_STB_IgG
- GSM8172769 shH2AJ_STB_S2_Rep1 shH2AJ_STB_S2
- GSM8172770 shH2AJ_STB_S2_Rep2 shH2AJ_STB_S2
- GSM8172771 shH2AJ_STB_S5_Rep1
- GSM8172772 EV_TSC_FLAG_Rep1_R1.fastq
- GSM8172773 EV_TSC_FLAG_Rep2_R1.fastq
- GSM8172774 OE-H2AJ_TSC_FLAG_Rep1_R1.fastq
- GSM8172775 OE-H2AJ_TSC_FLAG_Rep2_R1.fastq
- GSM8172776 OE-H2AJ_TSC_H2AJ_Rep1_R1.fastq
- GSM8172777 OE-H2AJ_TSC_H2AJ_Rep2_R1.fastq
- GSM8172778 shCon_ESC-Naive_Rep1 shCon_ESC-Naive
- GSM8172779 shCon_ESC-Naive_Rep2 shCon_ESC-Naive
- GSM8172780 shCon_ESC-Primed_Rep1 shCon_ESC-Primed
- GSM8172781 shCon_ESC-Primed_Rep2 shCon_ESC-Primed
- GSM8172782 shCon_Okae_Rep1 shCon_Okae
- GSM8172783 shCon_Okae_Rep2 shCon_Okae
- GSM8172784 shCon_STB-Primed_Rep1 shCon_STB-Primed
- GSM8172785 shCon_STB-Primed_Rep2 shCon_STB-Primed
- GSM8172786 shCon_TSC-Naive_Rep1 shCon_TSC-Naive
- GSM8172787 shCon_TSC-Naive_Rep2 shCon_TSC-Naive
- GSM8172788 shCon_TSC-Primed_Rep1 shCon_TSC-Primed
- GSM8172789 shCon_TSC-Primed_Rep2 shCon_TSC-Primed
- GSM8172790 shH2AJ_ESC-Naive_Rep1 shH2AJ_ESC-Naive
- GSM8172791 shH2AJ_ESC-Naive_Rep2 shH2AJ_ESC-Naive
- GSM8172792 shH2AJ_ESC-Primed_Rep1 shH2AJ_ESC-Primed
- GSM8172793 shH2AJ_ESC-Primed_Rep2 shH2AJ_ESC-Primed
- GSM8172794 shH2AJ_Okae_Rep1 shH2AJ_Okae
- GSM8172795 shH2AJ_Okae_Rep2 shH2AJ_Okae
+ 18 more — browse all 58 samples with per-sample file links →
- GSE289858 Massively parallel assessment of gene regulatory activity at human cortical structure associated variants 66 samples shares regulator, variant
- GSE261033 Epigenetic landscape, key transcriptional regulators, and in vivo identification of human Tr1 cells [scMultiome] 28 samples shares epigenetic, regulator
- GSE336960 Phenotypic CRISPR screening identifies ZBTB10 as a novel regulator of human trophoblast differentiation 22 samples shares trophoblast, regulator
- GSE297471 Genetic and epigenetic screens in primary human T cells link candidate causal autoimmune variants to T cell networks [MPRA] 13 samples shares epigenetic, variant
- GSE302930 Epigenetic Atlas of Bladder Cancer Reveals Master Transcription Factors and Risk-Associated Regulatory Elements in Luminal and Basal-Squamous Molecular Subtypes 92 samples shares epigenetic, regulator
- GSE243526 Defining the Regulatory Logic of Breast Cancer Using Single-Cell Epigenetic and Transcriptome Profiling 40 samples shares epigenetic, regulator
- GSE291224 AF9/KLF2 gene regulatory circuit links histone lactylation to breast cancer metastasis [CUT&Tag] 22 samples shares regulator, histone
- GSE280574 mChIP-seq for high-throughput epigenomic profiling reveals a decoupling of H2A.Z and H3K4me3 in cancer 576 samples shares h2a
Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.